PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

NNU_025232-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

LSD

Protein Properties

Length: 218aa MW: 23675.9 Da PI: 8.9299

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_025232-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	38.3	2.2e-12	93	116	2	25
zf-LSD1 2 ggCrtlLsYPrGApsVRCalCdtV 25 +gCr+lL+YP GA+ V+Ca+C++V NNU_025232-RA 93 SGCRNLLAYPVGATFVCCAVCNAV 116 59*********************9 PP
2	zf-LSD1	34.9	2.6e-11	131	155	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cgg +t+L+Y rGA+sV+C++C+t+ NNU_025232-RA 131 CGGRHTILMYIRGATSVQCPCCHTI 155 9999*******************97 PP
3	zf-LSD1	41	3.1e-13	169	193	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V NNU_025232-RA 169 CGNCRMLLMYQYGARSVKCAVCNFV 193 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF118310	9.22E-11	8	63	No hit	No description
PROSITE profile	PS51039	8.259	12	61	IPR000058	Zinc finger, AN1-type
Gene3D	G3DSA:4.10.1110.10	5.8E-9	12	60	IPR000058	Zinc finger, AN1-type
Pfam	PF01428	2.7E-9	15	55	IPR000058	Zinc finger, AN1-type
TIGRFAMs	TIGR01053	2.5E-10	89	119	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.9E-9	93	116	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.8E-11	128	157	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.5E-9	131	155	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	6.9E-12	166	195	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.9E-12	169	193	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 218 aa Download sequence Send to blast
MFGDCDPSKN RKPKCPVMRC KQILTFSNTN TCKICNQKVC LKHRFPADHA CKQAASFLAA 60 THSRGSPPNP IKFLVALIIL FSIKGAQSQL VYSGCRNLLA YPVGATFVCC AVCNAVTAVS 120 SPGTEMAQLV CGGRHTILMY IRGATSVQCP CCHTINLAME ANQVVHVNCG NCRMLLMYQY 180 GARSVKCAVC NFVTSIGHDQ VTLAIFSVLK FSNDPQTK

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269\|PubMed:15915636}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010275257.1	2e-70	PREDICTED: protein LSD1-like
Refseq	XP_010275258.1	2e-70	PREDICTED: protein LSD1-like
Refseq	XP_010275259.1	2e-70	PREDICTED: protein LSD1-like
Refseq	XP_010275260.1	2e-70	PREDICTED: protein LSD1-like
Swissprot	Q0J7V9	4e-66	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A1U8B6W7	4e-69	A0A1U8B6W7_NELNU; protein LSD1-like
STRING	XP_010246054.1	5e-89	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	6e-56	lsd one like 1

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]